TB-Profiler result

Run: SRR4036018
Summary

Run ID: SRR4036018

Sample name:

Date: 04-04-2023 07:26:46

Number of reads: 890937

Percentage reads mapped: 99.68

Strain: lineage4.4.1.1.1

Drug-resistance: Sensitive

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Drug resistance: This table reports drug-resistance associated mutations found in known resistance genes
Drug Resistance Supporting mutations
Lineage Table: The lineage is inferred by analysing lineage specific SNPs
Lineage Family Main Spoligotype RDs Frequency
lineage4 Euro-American LAM;T;S;X;H None 1.0
lineage4.4 Euro-American S;T None 1.0
lineage4.4.1 Euro-American (S-type) S;T None 1.0
lineage4.4.1.1 Euro-American S;Orphans None 1.0
lineage4.4.1.1.1 Euro-American S;Orphans None 1.0
Drug resistance-Associated Mutations: This table reports mutations found in candidate resistance genes which have been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction Drugs
Non-Associated Mutations: This table reports mutations found in candidate resistance genes which have not been associated with drug resistance
Gene Chromosome position Mutation Type Estimated fraction
gyrA 7362 p.Glu21Gln missense_variant 1.0
gyrA 7585 p.Ser95Thr missense_variant 1.0
gyrA 9304 p.Gly668Asp missense_variant 1.0
rpoB 760763 c.957C>T synonymous_variant 0.11
mmpL5 775639 p.Ile948Val missense_variant 1.0
mmpL5 779175 c.-695G>T upstream_gene_variant 0.13
rpsL 781395 c.-165T>C upstream_gene_variant 1.0
fbiC 1303208 p.Pro93Leu missense_variant 0.13
fbiC 1304012 p.Thr361Met missense_variant 0.2
fbiC 1304460 c.1530C>T synonymous_variant 0.14
rrs 1471659 n.-187C>T upstream_gene_variant 1.0
inhA 1673793 c.-409G>A upstream_gene_variant 0.11
fabG1 1674148 p.Ile237Phe missense_variant 0.12
rpsA 1834162 p.Gln207His missense_variant 0.15
tlyA 1917972 c.33A>G synonymous_variant 1.0
ndh 2102990 p.Val18Ala missense_variant 1.0
katG 2156365 c.-254C>A upstream_gene_variant 0.14
PPE35 2169840 p.Gly258Asp missense_variant 1.0
Rv1979c 2223293 c.-129A>G upstream_gene_variant 1.0
kasA 2518038 c.-77G>A upstream_gene_variant 0.13
eis 2714244 c.1089G>A synonymous_variant 0.17
eis 2715135 c.198T>C synonymous_variant 0.15
pepQ 2860146 c.273C>T synonymous_variant 0.25
ribD 2986767 c.-72T>C upstream_gene_variant 0.12
thyA 3073806 c.666C>G synonymous_variant 0.38
ald 3086788 c.-32T>C upstream_gene_variant 1.0
ald 3087324 p.Ala169Thr missense_variant 0.11
Rv3083 3448416 c.-88C>T upstream_gene_variant 0.12
Rv3083 3448608 c.105G>A synonymous_variant 1.0
fprA 3473996 c.-11_-10insA upstream_gene_variant 1.0
Rv3236c 3612665 p.Val151Ala missense_variant 1.0
embA 4242643 c.-590C>T upstream_gene_variant 1.0
embA 4244857 p.Ala542Val missense_variant 0.14
embB 4248909 p.Ala799Asp missense_variant 0.13
aftB 4268366 c.471C>T synonymous_variant 0.14
ubiA 4269864 c.-32delG upstream_gene_variant 0.13
ethA 4326308 p.Ala389Val missense_variant 0.12
whiB6 4338595 c.-75delG upstream_gene_variant 1.0
gid 4408307 c.-105G>T upstream_gene_variant 0.12